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4EPD
Biol. Unit 1
Info
Asym.Unit (138 KB)
Biol.Unit 1 (391 KB)
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(1)
Title
:
INITIAL UREASE STRUCTURE FOR RADIATION DAMAGE EXPERIMENT AT 300 K
Authors
:
M. Warkentin, R. Badeau, J. B. Hopkins, R. E. Thorne
Date
:
17 Apr 12 (Deposition) - 29 Aug 12 (Release) - 23 Jan 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.70
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A,B,C (3x)
Keywords
:
Alpha-Beta Barrel, Nickel Metalloenzyme, Hydrolase, Radiation Damage
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Warkentin, R. Badeau, J. B. Hopkins, R. E. Thorne
Spatial Distribution Of Radiation Damage To Crystalline Proteins At 25-300 K.
Acta Crystallogr. , Sect. D V. 68 1108 2012
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Hetero Components
(1, 3)
Info
All Hetero Components
1a: LYSINE NZ-CARBOXYLIC ACID (KCXa)
2a: NICKEL (II) ION (NIa)
2b: NICKEL (II) ION (NIb)
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No.
Name
Count
Type
Full Name
1
KCX
3
Mod. Amino Acid
LYSINE NZ-CARBOXYLIC ACID
2
NI
-1
Ligand/Ion
NICKEL (II) ION
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Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
KCX C:1217 , HIS C:1219 , HIS C:1246 , HIS C:1272 , GLY C:1277 , NI C:1602 , HOH C:1702 , HOH C:1703
BINDING SITE FOR RESIDUE NI C 1601
2
AC2
SOFTWARE
HIS C:1134 , HIS C:1136 , KCX C:1217 , ASP C:1360 , NI C:1601 , HOH C:1702 , HOH C:1704
BINDING SITE FOR RESIDUE NI C 1602
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
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Exons
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
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SCOP Domains
(4, 4)
Info
All SCOP Domains
1a: SCOP_d4epdb_ (B:)
2a: SCOP_d4epdc1 (C:1002-1129,C:1423-1475)
3a: SCOP_d4epda_ (A:)
4a: SCOP_d4epdc2 (C:1130-1422,C:1476-1567)
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Class
:
All beta proteins
(24004)
Fold
:
beta-clip
(280)
Superfamily
:
Urease, beta-subunit
(40)
Family
:
Urease, beta-subunit
(40)
Protein domain
:
Urease, beta-subunit
(39)
Enterobacter aerogenes [TaxId: 548]
(4)
1a
d4epdb_
B:
Fold
:
Composite domain of metallo-dependent hydrolases
(103)
Superfamily
:
Composite domain of metallo-dependent hydrolases
(103)
Family
:
alpha-Subunit of urease
(40)
Protein domain
:
alpha-Subunit of urease
(40)
Enterobacter aerogenes [TaxId: 548]
(4)
2a
d4epdc1
C:1002-1129,C:1423-1475
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Urease, gamma-subunit
(42)
Superfamily
:
Urease, gamma-subunit
(42)
Family
:
Urease, gamma-subunit
(40)
Protein domain
:
Urease, gamma-subunit
(40)
Enterobacter aerogenes [TaxId: 548]
(4)
3a
d4epda_
A:
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
Metallo-dependent hydrolases
(273)
Family
:
alpha-subunit of urease, catalytic domain
(40)
Protein domain
:
alpha-subunit of urease, catalytic domain
(40)
Enterobacter aerogenes [TaxId: 548]
(4)
4a
d4epdc2
C:1130-1422,C:1476-1567
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CATH Domains
(0, 0)
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all CATH domains
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Pfam Domains
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Asym.Unit (138 KB)
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